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Votes
0
votes
2
replies
1.3k
views
CRISPRseek package: findgRNAs error
CRISPRseek
4.2 years ago
nderian
▴ 10
0
votes
2
replies
1.2k
views
R/Bioconductor package for Circulating Cell-Free DNA data analysis
SequencingData
4.3 years ago • updated 4.2 years ago
adR
▴ 40
0
votes
1
reply
1.5k
views
upset-style plot to show marginal intersections
UpsetPlot
updated 4.2 years ago by
Lluís Revilla Sancho
▴ 760 • written 4.2 years ago by
Daniel.Schnell
• 0
0
votes
2
replies
1.6k
views
DESeq2 interaction terms in 2x2x2 factorial design
Interactions
design
Multifactorial
DESeq2
updated 4.2 years ago by
swbarnes2
★ 1.4k • written 4.2 years ago by
Marie
• 0
6
votes
7
replies
3.6k
views
GEOquery reading error on Windows.
GEOquery
GEO
Gene
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
Caitlin
▴ 50
0
votes
0
replies
751
views
genbankr throwing C stack usage error when reading in files >500Kb
genbankr
4.2 years ago
Lauren
• 0
0
votes
5
replies
1.8k
views
Is there a way to get the confidence interval for the fold change generated on DESeq2
DESeq2
4.2 years ago
adeler001
• 0
4
votes
4
replies
6.8k
views
FeatureCounts
counts
subread
RNASeq
featurecounts
4.2 years ago
k___
▴ 30
0
votes
1
reply
1.1k
views
write a for loop for searching TF with TFBSTools
TFBSTools
R
forloop
updated 4.2 years ago by
onlineclasshelpnow
• 0 • written 4.2 years ago by
HELEN
• 0
1
vote
5
replies
2.4k
views
slow bplapply?
BiocParallel
4.2 years ago • updated 3.1 years ago
Wu, Hao
▴ 20
2
votes
4
replies
1.8k
views
default behaviour of import.bw
import.bw
rtracklayer
4.2 years ago
Yixin
• 0
0
votes
1
reply
1.3k
views
Issue with annotation package mouse4302.db
mouse4302.db
annotation
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
surajit
• 0
1
vote
1
reply
1.7k
views
affycoretools - include percent variance explained in plotPCA()
affycoretools
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
Gerhard Thallinger
▴ 180
1
vote
1
reply
1.1k
views
afffycoretools - warnings in mirna2mrna()
affycoretools
DBI
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
Gerhard Thallinger
▴ 180
1
vote
3
replies
2.8k
views
Rsamtools : Extracting Unmapped Reads from BAM file
Unmapped
RNAseq
Rsamtools
4.2 years ago
polemiraza
▴ 70
15
votes
13
replies
4.8k
views
celldex ensembl gene annotation issue
SingleR
celldex
HumanPrimaryCellAtlasData
ensembl
updated 4.2 years ago by
xiang
▴ 10 • written 4.2 years ago by
immuno.dh
▴ 20
0
votes
2
replies
1.3k
views
question about the refined outputs from GOfuncR package
GOfuncR
4.2 years ago • updated 3.6 years ago
capricygcapricyg
▴ 10
0
votes
0
replies
1.1k
views
Read the first sequence from fasta file - TFBSTool
TFBSTools
FASTA
RStudio
4.2 years ago
HELEN
• 0
0
votes
1
reply
1.8k
views
tximport samples with separate tx2gene maps
tximport
updated 4.2 years ago by
Michael Love
43k • written 4.3 years ago by
nicolette.sipperly
• 0
0
votes
1
reply
906
views
DESeq2 Timecourse design
DESeq2
updated 4.2 years ago by
Michael Love
43k • written 4.2 years ago by
Mallory
▴ 10
3
votes
5
replies
2.6k
views
Error when using summarizeToGene with tximeta input for DESeq2 analysis
tximeta
SummarizedExperiment
DESeq2
updated 4.2 years ago by
Michael Love
43k • written 4.2 years ago by
alexw
• 0
0
votes
1
reply
982
views
Account for parent cell line when comparing isogenic mutants
interactions
design
DESeq2
updated 4.2 years ago by
Michael Love
43k • written 4.2 years ago by
oliver.ziff
• 0
1
vote
2
replies
1.8k
views
Identifying presence of certain genes
DifferentialExpression
TCGAWorkflow
4.2 years ago
Sam
▴ 10
6
votes
10
replies
2.5k
views
rnaseqGene: Different output when generating step by step airway dataset
tximeta
DESeq2
rnaseqGene
updated 4.2 years ago by
Michael Love
43k • written 4.2 years ago by
jorgeplaza
▴ 20
0
votes
0
replies
1.3k
views
about monocle3
monocle3
4.2 years ago
Bogdan
▴ 670
3
votes
4
replies
3.8k
views
STRINGdb: Error in download.file(urlStr, temp)
STRINGdb
R
updated 4.0 years ago by
damian.szk
▴ 110 • written 4.2 years ago by
qardessio
▴ 10
0
votes
2
replies
2.6k
views
Rsubread featureCounts segmentation fault with lots of read groups
Rsubread
updated 4.2 years ago by
Yang Liao
▴ 450 • written 4.2 years ago by
mruffalo
• 0
0
votes
1
reply
1.4k
views
TFBSTools and readFASTA
TFBSTools
DNASeqData
readFASTA
DNA
RStudio
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
HELEN
• 0
2
votes
5
replies
2.1k
views
Extracting fitted expression in limma
limma
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
rf
• 0
2
votes
3
replies
1.7k
views
slidingIRanges in IRanges ... odd behavior
IRanges
updated 3.0 years ago by
axelrhuber
• 0 • written 4.2 years ago by
story.benjamin
▴ 20
0
votes
2
replies
5.0k
views
Ensembl site unresponsive, trying uswest mirror
GenomicVariantsWorkflow
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
geog.wanjala
• 0
0
votes
4
replies
2.9k
views
Error in .order_seqlevels(chrom_sizes[, "chrom"])
ChIPpeakAnno
4.2 years ago
Tongjun
• 0
1
vote
1
reply
1.4k
views
Incorporating RUVg results into ImpulseDE2 model
ImpulseDE2
ImpulseDE
ERCC
RUVSeq
4.3 years ago • updated 4.2 years ago
Mallory
▴ 10
0
votes
1
reply
2.5k
views
ChIPseeker issue with plotpeakProf2 when making plot of peak profile across gene body and flanks
ChIPseeker
4.2 years ago
william.ho
• 0
10
votes
18
replies
4.6k
views
ensembldb support for Ensembl's transcript_name column
ensembldb
updated 4.2 years ago by
Hervé Pagès
16k • written 4.2 years ago by
Michael Love
43k
4
votes
6
replies
2.1k
views
RMA on different disease labels
rma
background
microarray
normalization
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
Joshua
• 0
0
votes
1
reply
1.3k
views
DESeq2 design formula
DESeq2
updated 4.2 years ago by
Michael Love
43k • written 4.2 years ago by
nikolaus.virgolini
• 0
1
vote
5
replies
4.0k
views
tximport error: all(txId == raw[[txIdCol]]) is not TRUE
tximport
updated 2.5 years ago by
Michael Love
43k • written 4.2 years ago by
nicolette.sipperly
• 0
0
votes
2
replies
1.7k
views
Design formula in DESeq2
model
BatchEffect
hidden
Design
DESeq2
4.2 years ago
m.glymenaki
• 0
5
votes
4
replies
1.3k
views
DESeq2 with multiple variable give me different results
Factor
Levels
Dispersionestimates
DESeq2
4.2 years ago
rafaelsolersanblas
▴ 50
1
vote
1
reply
725
views
Mac/Windows test build systems?
build
updated 4.2 years ago by
shepherl
4.3k • written 4.2 years ago by
hstern2
• 0
0
votes
1
reply
1.0k
views
CopywriteR output
CopywriteR
updated 21 months ago by
fer_talavera
• 0 • written 4.2 years ago by
Joshua
• 0
0
votes
5
replies
2.1k
views
Rcpp mismatch? MzR problem
mzR
updated 4.2 years ago by
Laurent Gatto
1.6k • written 4.2 years ago by
Daphne Siyuan
• 0
0
votes
2
replies
1.3k
views
DESeq2 ratio of ratios and p-value
DESeq2
dese
4.2 years ago
wilfried.guiblet
• 0
1
vote
3
replies
8.2k
views
Understanding findoverlaps function in GenomicRanges
GenomicRanges
genomicra
updated 4.2 years ago by
James W. MacDonald
68k • written 4.2 years ago by
Alexandre
▴ 10
0
votes
8
replies
2.0k
views
DESeq2 cannot relevel
DESeq2
4.2 years ago
Jorge
• 0
0
votes
1
reply
1.1k
views
Error in flowCore::read.FCS(): Error in uint2double(splitted, endian == "big") : vector
read.FCS
flowCore
4.2 years ago
Rainer
• 0
3
votes
2
replies
5.2k
views
gseGO input list
clusterProfiler
4.2 years ago
leakerb
• 0
0
votes
0
replies
1.5k
views
Job:
Postdoctoral Scientist in Statistical Bioinformatics, WEHI, Melbourne, Australia
JobPosting
4.2 years ago
Yunshun Chen
▴ 900
0
votes
1
reply
1.1k
views
Multiple testing correction for p.scores in FELLA
FELLA
4.2 years ago
sergi.picart
▴ 20
46,721 results • Page
108 of 935
Recent ...
Replies
Comment: Joining different datasets and analyzing using the group-specific condition effe
by
jason.chai
• 0
Thank you very much. I had read that and wondered if I used the recommendation in DESeq vignette, I would lose the pairing between groups? …
Comment: Questions about bacon QC and correction on EWAS results
by
sup0903
• 0
This is qq plot and histogram generated before bacon correction ![enter image description here][1] ![enter image description here][2] …
Comment: Ensembl site unresponsive via biomaRt
by
sebastianenewell
• 0
> I think this is an unrelated issue. The original post includes the > message Error: 'curl_parse_url' is not an exported object from > 'na…
Comment: Development of MSstat workflow to analyze DIA time series data
by
Gordon Smyth
53k
Are there any other explanatory factors or covariates in your experiment other than time point? Do you have biological replicates at each t…
Answer: Question about the filterByExpr function inputs in edgeR
by
Gordon Smyth
53k
Either of these choices is perfectly acceptable from an edgeR analysis point of view, it is more to do with which is more relevant for your…
Votes
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
C: ControlGenes/ housekeeping genes Deseq2
Answer: Clarification on counting in Rsubread (featureCounts)
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